Docking pose detail

Molecular metrics status: done

RDKit SASA-based burial metrics are cached.

SASA cached

T11

L. infantum SIR2 L. infantum

Ligand OHD_Babesia_33

3D complex viewer

Strict H-bonds Permissive H-bonds

Viewer legend

Protein receptor

Pocket residues

Cofactor context

Docked ligand

Overall assessment

Weak SASA cached

Weak or marginal quality

Binding strong Geometry high Native strong SASA done

Strain ΔE

13.2 kcal/mol

Protein clashes

Internal clashes

Native overlap

contact recall 0.56, Jaccard 0.56, H-bond role recall 0.40

Burial

68%

Hydrophobic fit

93%

Reason: no major geometry red flags detected

1 protein-contact clashes 68% of hydrophobic surface is solvent-exposed (13/19 atoms). Large non-polar area without protein contacts incurs a desolvation penalty and will reduce binding affinity. Consider truncating or replacing the exposed fragment.

EcoTox / ADMET In-silico prediction only

Fish LC₅₀

Cat. 2 — Toxic (1–10 mg/L)

Daphnia EC₅₀

Cat. 2 — Toxic (1–10 mg/L)

Algae IC₅₀

Cat. 2 — Toxic (1–10 mg/L)

Bioaccum.

Not B (BCF≤2000)

Persistent

ADMET alerts (in-silico)

hERG Medium Ames Clear DILI Low

Molecular report

Full metrics ↗

Weak Marginal quality. Consider only alongside better-scoring alternatives.

✓ Excellent LE (-1.010 kcal/mol/HA) ✓ Good fit quality (FQ -9.05) ✓ Good H-bonds (4 bonds) ✓ Deep burial (68% SASA buried) ✓ Lipophilic contacts well-matched (93%) ✗ Moderate strain (13.2 kcal/mol) ✗ Geometry warnings ✗ Many internal clashes (13)

Score

-24.247

kcal/mol

-1.010

kcal/mol/HA

Fit Quality

-9.05

FQ (Leeson)

HAC

heavy atoms

339

LogP

4.07

cLogP

Final rank

2.6603

rank score

Inter norm

-0.991

normalised

Contacts

H-bonds 5

Strain ΔE

13.2 kcal/mol

SASA buried

68%

Lipo contact

93% BSA apolar/total

SASA unbound

567 Å²

Apolar buried

358 Å²

Interaction summary

HBD 1 HBA 3 HY 5 PI 2 CLASH 1

HBD/HBA · H-bonds (geometric)

HBD = ligand donates H · HBA = ligand accepts H · ~ = weak (≥110°). Mode: strict. Residues: 2.

PI · π–π interactions

Native π–π recall is disabled because no explicit native π–π reference was stored.

HY · Hydrophobic contacts

CLASH · Clashes

Native ligand reference

★ reference

Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.

Name	5OL0	Contacts	18
Pose	Open native pose	HB	0
IFP residues	ASN193 GLN220 GLU192 GLY191 HIS144 HIS222 ILE126 LEU194 LEU226 PHE189 PHE190 PHE199 PHE74 PRO223 THR71 VAL187 VAL188 VAL221
Current overlap	10	Native recall	0.56
Jaccard	0.56	RMSD	-
HB strict	2	Strict recall	0.40
HB same residue+role	2	HB role recall	0.40
HB same residue	2	HB residue recall	0.50

Protein summary

287 residues

Protein target	T11	Atoms	4391
Residues	287	Chains	1
Residue summary	LEU:627; ARG:432; VAL:384; GLU:316; PHE:300; ILE:285; ALA:260; PRO:238; HIS:187; ASP:157; LYS:154; SER:154; THR:154; GLY:147; ASN:140; TYR:126

All stored poses for this docking hit

Pose	Final rank	Inter norm	Score	HB	CT	CT overlap	CT recall	HB role rec.	RMSD	Excluded
41	2.6603010560584135	-0.991411	-24.2465	5	10	10	0.56	0.40	-	no	Current

Molecular metrics

RDKit SASA burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.

✓ Metrics available

Scoring & efficiency

Docking score -24.247kcal/mol

Ligand efficiency (LE) -1.0103kcal/mol/HA

Score / heavy atom count

Fit quality (FQ) -9.054

LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe

Heavy atom count 24HA

Physicochemical properties

Molecular weight 338.8Da

Lipinski: ≤ 500 Da

LogP (cLogP) 4.07

Lipinski: ≤ 5

Rotatable bonds 5

Conformational strain (MMFF94s)

Strain energy (ΔE) 13.21kcal/mol

< 5 good · 5–10 marginal · > 10 problematic

Docked FF energy 28.45kcal/mol

Minimised FF energy 15.24kcal/mol

SASA & burial

✓ computed

SASA (unbound) 566.8Å²

Total solvent-accessible surface area of free ligand

BSA total 383.5Å²

Buried surface area upon binding

BSA apolar 358.0Å²

Hydrophobic contacts buried

BSA polar 25.5Å²

Polar contacts buried

Fraction buried 67.7%

> 60 % indicates good pocket engagement

Lipophilic contact ratio 93.4%

BSA apolar / BSA total — high = hydrophobic driver

Δ Non-polar SASA -1881.4Å²

SASA_nonpolar(complex) − SASA_nonpolar(receptor) − SASA_nonpolar(ligand free). Negative = non-polar surface buried upon binding. Requires full polarity-decomposed SASA computation.

Receptor non-polar SASA 2380.0Å²

Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)

Complex non-polar SASA 998.7Å²

Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)